How to Build CHD@ZJU

CHD related Articles were retrieved from Pubmed, by entering keywords "coronary heart disease" and constrict the publish date from 2000/1/1 to now (2013/1/23). As a result, totally 115898 articles were found and their abstracts were downloaded for text mining. Since some articles didn't contain abstracts, only 88396 abstracts remained.

The text-mining process to get CHD related genes could be divided in to 5 following steps:

  • 1) Extracting all keywords from abstracts and ignoring those keywords start with numbers. 101402 keywords were extracted.

  • 2) Input these keywords into Gene library in ArrayTrack and find possible related genes. 4674 genes were then found.

  • 3) Put these 4674 genes again into pubmed abstracts to find related aticles. Only genes which offical name or there keyword description (such as prolactin for gene PRL) could be found in the abstract would be remained. As a result, 1247 genes were remained.

  • 4) Manually examined on the 1247 genes to validate it was acutally related to CHD. Some genes would be filtered if it represents other meanings (such as gene CAD, Entrez ID:790, carbamoyl-phosphate synthetase 2, is mostly meant coronary arterial disease in articles). 681 genes were then validated with at least one reference.

  • 5) All genes was compared with 1078 CHD genes in RGD database, and 370 genes were overlapped. These 370 genes were labels as "RGD_Supported" and the other 293 genes were labels as "REFERED". All 663 genes had supported references in CHD@ZJU which were examined by step 4.
  • How To contact Us

    Collaboration Information: Prof. Xiaohui Fan (fanxh@zju.edu.cn)

    Website using assistance : Leihong Wu (11019004@zju.edu.cn)



    Basic Information

    Gene Name: CXCR1

    Description: chemokine (C-X-C motif) receptor 1

    Entrez Gene ID: 3577

    SwissProt Acc Number: P25024

    RefSeq: NM_000634

    It was supported literatures to be a novel CHD related gene:

    .."On granulocytes, CXCR1 and CXCR2 receptors were downregulated in all patients, compared with controls. "..

    From PMID: 16456237, in Journal Cell Biochem Biophys. , 2006


    References

    There were 2 potential papers with CXCR1 and CHD.

    PMIDTitleJournalsDetails
    21915051 Elevated expression of the interleukin-8 receptors CXCR1 and CXCR2 in peripheral blood cells in obstructive coronary artery disease.Coronary artery diseaseMore Details
    16456237 Altered chemokine receptor profile on circulating leukocytes in human heart failure.Cell biochemistry and biophysicsMore Details

    NOTEs: These result is mostly from TEXT-MINING and there might have mismatches.



    PPI interactions

    There were totally 13 unique genes interacted with CXCR1. Show PPI network

    Gene nameInteraction typereference PMIDCHD relation
    GNAI2 Affinity Capture-Western8903513|8662698|8662698,8903513 No
    CXCR1 in vivo15946947 CHD related
    GNA14 in vitro8316840 No
    CXCL6 in vivo10593335,9692902 No
    CXCL2 in vitro;in vivo9260277 CHD related
    CXCL3 in vitro;in vivo8702798 No
    GNA15 in vivo9843397 No
    CXCR2 in vivo15946947 CHD related
    ADRA1A in vivo15946947 CHD related
    IL8 in vitro;in vivo1840701 CHD related
    CXCL1 in vivo1379593,8702798 CHD related
    PPBP in vitro;in vivo8195702,1427896 No
    CXCL5 in vivo9692902,8702798 CHD related


    Involved FDA drugs

    StatusDrubBank IDNameIndicationATC Code
    approvedDB01009Ketoprofen"For symptomatic treatment of acute and chronic rheumatoid arthritis, osteoarthritis, ankylosing spondylitis, primary dysmenorrhea and mild to moderate pain associated with musculotendinous trauma (sprains and strains), postoperative (including dental surgery) or postpartum pain."M01AE03;M01AE17;M02AA10